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Crocc ciliary rootlet coiled-coil, rootletin [ Rattus norvegicus (Norway rat) ]

Gene ID: 313663, updated on 2-Nov-2024

Summary

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Official Symbol
Croccprovided by RGD
Official Full Name
ciliary rootlet coiled-coil, rootletinprovided by RGD
Primary source
RGD:1305364
See related
EnsemblRapid:ENSRNOG00000008334 AllianceGenome:RGD:1305364
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable actin binding activity; kinesin binding activity; and structural molecule activity. Predicted to be a structural constituent of cytoskeleton. Predicted to be involved in several processes, including centriole-centriole cohesion; positive regulation of cilium assembly; and positive regulation of protein localization to cilium. Predicted to act upstream of or within several processes, including ciliary basal body organization; epithelial structure maintenance; and photoreceptor cell maintenance. Predicted to be located in several cellular components, including cytoskeleton; photoreceptor inner segment; and subapical part of cell. Predicted to be active in centriole and centrosome. Orthologous to human CROCC (ciliary rootlet coiled-coil, rootletin). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Kidney (RPKM 80.2), Adrenal (RPKM 18.7) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Crocc in Genome Data Viewer
Location:
5q36
Exon count:
40
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (158603979..158646728, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (153320962..153363734, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (159540453..159583194, complement)

Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene succinate dehydrogenase complex iron sulfur subunit B Neighboring gene ATPase cation transporting 13A2 Neighboring gene microfibril associated protein 2 Neighboring gene uncharacterized LOC120103023 Neighboring gene NECAP endocytosis associated 2 Neighboring gene migration and invasion enhancer 1, pseudogene 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Rootletin forms centriole-associated filaments and functions in centrosome cohesion. Bahe S, et al. J Cell Biol, 2005 Oct 10. PMID 16203858, Free PMC Article
  2. The ciliary rootlet maintains long-term stability of sensory cilia. Yang J, et al. Mol Cell Biol, 2005 May. PMID 15870283, Free PMC Article
  3. Rootletin interacts with C-Nap1 and may function as a physical linker between the pair of centrioles/basal bodies in cells. Yang J, et al. Mol Biol Cell, 2006 Feb. PMID 16339073, Free PMC Article
  4. Rootletin, a novel coiled-coil protein, is a structural component of the ciliary rootlet. Yang J, et al. J Cell Biol, 2002 Nov 11. PMID 12427867, Free PMC Article
  5. Three-dimensional architecture of the rod sensory cilium and its disruption in retinal neurodegeneration. Gilliam JC, et al. Cell, 2012 Nov 21. PMID 23178122, Free PMC Article

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables actin binding ISO
Inferred from Sequence Orthology
more info
  
enables kinesin binding ISO
Inferred from Sequence Orthology
more info
  
enables structural constituent of cytoskeleton ISO
Inferred from Sequence Orthology
more info
  
enables structural molecule activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within cellular homeostasis ISO
Inferred from Sequence Orthology
more info
  
involved_in centriole-centriole cohesion ISO
Inferred from Sequence Orthology
more info
  
involved_in centrosome cycle IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in centrosome cycle ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within ciliary basal body organization ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within epithelial structure maintenance ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within establishment of localization in cell ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within establishment of organelle localization ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within photoreceptor cell maintenance ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of cilium assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of protein localization to cilium ISO
Inferred from Sequence Orthology
more info
  
involved_in protein localization ISO
Inferred from Sequence Orthology
more info
  
involved_in protein localization to organelle ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in 9+2 motile cilium ISO
Inferred from Sequence Orthology
more info
  
located_in actin cytoskeleton IEA
Inferred from Electronic Annotation
more info
  
located_in actin cytoskeleton ISO
Inferred from Sequence Orthology
more info
  
is_active_in centriole IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in centriole ISO
Inferred from Sequence Orthology
more info
  
is_active_in centrosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in centrosome ISO
Inferred from Sequence Orthology
more info
  
located_in ciliary rootlet ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in photoreceptor inner segment ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  
located_in subapical part of cell ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
rootletin

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001415935.1 → NP_001402864.1  rootletin

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000005
    UniProtKB/TrEMBL
    F1M6Q2
    Related
    ENSRNOP00000052694.3, ENSRNOT00000055839.6

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086023.1 Reference GRCr8

    Range
    158603979..158646728 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063287810.1 → XP_063143880.1  rootletin isoform X6

  2. XM_063287807.1 → XP_063143877.1  rootletin isoform X4

  3. XM_063287809.1 → XP_063143879.1  rootletin isoform X5

    Related
    ENSRNOP00000079103.2, ENSRNOT00000107095.2

  4. XM_063287806.1 → XP_063143876.1  rootletin isoform X3

    UniProtKB/TrEMBL
    F1M6Q2

  5. XM_063287805.1 → XP_063143875.1  rootletin isoform X2

  6. XM_063287811.1 → XP_063143881.1  rootletin isoform X7

  7. XM_039110073.2 → XP_038966001.1  rootletin isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZM97
    Conserved Domains (3) summary
    COG1196
    Location:1093 → 1882
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam15921
    Location:55 → 660
    CCDC158; Coiled-coil domain-containing protein 158
    pfam15035
    Location:158 → 335
    Rootletin; Ciliary rootlet component, centrosome cohesion

  8. XM_063287812.1 → XP_063143882.1  rootletin isoform X8

  9. XM_017593415.3 → XP_017448904.1  rootletin isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZM97
    Related
    ENSRNOP00000079248.2, ENSRNOT00000106944.2
    Conserved Domains (3) summary
    COG1196
    Location:1093 → 1882
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam15921
    Location:55 → 660
    CCDC158; Coiled-coil domain-containing protein 158
    pfam15035
    Location:158 → 335
    Rootletin; Ciliary rootlet component, centrosome cohesion

  10. XM_063287813.1 → XP_063143883.1  rootletin isoform X9

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001107990.2: Suppressed sequence

    Description
    NM_001107990.2: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein Strain
Heading Accession and Version

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